BLASTP 2.2.26 [Sep-21-2011]
Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer,
Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997),
"Gapped BLAST and PSI-BLAST: a new generation of protein database search
programs", Nucleic Acids Res. 25:3389-3402.
Reference for compositional score matrix adjustment: Altschul, Stephen F.,
John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis,
Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches
using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109.
Query= 041177
(417 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|4AFR|A Chain A, The Structure Of Metacaspase 2 (C213a Mutant) From T.
Brucei
pdb|4AFV|A Chain A, The Structure Of Metacaspase 2 From T. Brucei Determined
In The Presence Of Calcium Chloride
Length = 367
Score = 107 bits (266), Expect = 2e-23, Method: Compositional matrix adjust.
Identities = 63/152 (41%), Positives = 82/152 (53%), Gaps = 10/152 (6%)
Query: 2 TKKAVLIGINYPGTKAELKGCVNDVKRMYACLVDRYGFSEENITVLIDTDD---RSTQPT 58
T +A+ IGINY GT A L GC NDVK+M A L + G +L+D D+ R+ QPT
Sbjct: 92 TVRALFIGINYYGTSAALSGCCNDVKQMLATL-QKKGLPINEAVILVDEDNFPGRTDQPT 150
Query: 59 GRNIRRALGNLVRSAEPGDVLFVHYSGHGTRLPAXXXXXXXXXXXXCIVPSDMN---LIT 115
NI R + LV+ A+PGDVLF HYSGHGT+ CI P D I
Sbjct: 151 RDNIVRYMAWLVKDAKPGDVLFFHYSGHGTQ--CKSRGDSDEKYDQCIAPVDFQKSGCIV 208
Query: 116 DDDFREFV-DQIPPGCEITVVSDSCHSGGLID 146
DDD + + ++P +T V D HSG ++D
Sbjct: 209 DDDIHKLLFSRLPEKVRLTAVFDCAHSGSIMD 240
Score = 31.6 bits (70), Expect = 0.93, Method: Compositional matrix adjust.
Identities = 23/71 (32%), Positives = 42/71 (59%), Gaps = 5/71 (7%)
Query: 338 ILVSGCQTDQTSAD----ASPSGKASEAYGALSNAIQIIIAESDGAVTNRELVLSTRQML 393
+++SGC +QTSAD A+ ++ A GA + I ++ + +++ +L++ TR ML
Sbjct: 273 MMISGCADEQTSADVKNTATFGTGSTGAGGAATQCITCMLMNNQ-SLSYGKLLIETRDML 331
Query: 394 KKQGFTQQPGL 404
K++ F Q P L
Sbjct: 332 KRKRFKQVPQL 342
>pdb|4AF8|A Chain A, The Structural Basis For Metacaspase Substrate Specificity
And Activation
Length = 367
Score = 106 bits (265), Expect = 2e-23, Method: Compositional matrix adjust.
Identities = 64/152 (42%), Positives = 82/152 (53%), Gaps = 10/152 (6%)
Query: 2 TKKAVLIGINYPGTKAELKGCVNDVKRMYACLVDRYGFSEENITVLIDTDD---RSTQPT 58
T +A+ IGINY GT A L GC NDVK+M A L R G +L+D D+ R+ QPT
Sbjct: 92 TVRALFIGINYYGTSAALSGCCNDVKQMLATLQKR-GLPINEAVILVDEDNFPGRTDQPT 150
Query: 59 GRNIRRALGNLVRSAEPGDVLFVHYSGHGTRLPAXXXXXXXXXXXXCIVPSDMN---LIT 115
NI R + LV+ A+PGDVLF HYSGHGT+ CI P D I
Sbjct: 151 RDNIVRYMAWLVKDAKPGDVLFFHYSGHGTQ--CKSRGDSDEKYDQCIAPVDFQKSGCIV 208
Query: 116 DDDFREFV-DQIPPGCEITVVSDSCHSGGLID 146
DDD + + ++P +T V D HSG ++D
Sbjct: 209 DDDIHKLLFSRLPEKVRLTAVFDCGHSGSIMD 240
Score = 31.6 bits (70), Expect = 0.95, Method: Compositional matrix adjust.
Identities = 23/71 (32%), Positives = 42/71 (59%), Gaps = 5/71 (7%)
Query: 338 ILVSGCQTDQTSAD----ASPSGKASEAYGALSNAIQIIIAESDGAVTNRELVLSTRQML 393
+++SGC +QTSAD A+ ++ A GA + I ++ + +++ +L++ TR ML
Sbjct: 273 MMISGCADEQTSADVKNTATFGTGSTGAGGAATQCITCMLMNNQ-SLSYGKLLIETRDML 331
Query: 394 KKQGFTQQPGL 404
K++ F Q P L
Sbjct: 332 KRKRFKQVPQL 342
>pdb|4AFP|A Chain A, The Structure Of Metacaspase 2 From T. Brucei Determined
In The Presence Of Samarium
Length = 367
Score = 105 bits (263), Expect = 4e-23, Method: Compositional matrix adjust.
Identities = 63/152 (41%), Positives = 82/152 (53%), Gaps = 10/152 (6%)
Query: 2 TKKAVLIGINYPGTKAELKGCVNDVKRMYACLVDRYGFSEENITVLIDTDD---RSTQPT 58
T +A+ IGINY GT A L GC NDVK+M A L + G +L+D D+ R+ QPT
Sbjct: 92 TVRALFIGINYYGTSAALSGCCNDVKQMLATL-QKKGLPINEAVILVDEDNFPGRTDQPT 150
Query: 59 GRNIRRALGNLVRSAEPGDVLFVHYSGHGTRLPAXXXXXXXXXXXXCIVPSDMN---LIT 115
NI R + LV+ A+PGDVLF HYSGHGT+ CI P D I
Sbjct: 151 RDNIVRYMAWLVKDAKPGDVLFFHYSGHGTQ--CKSRGDSDEKYDQCIAPVDFQKSGCIV 208
Query: 116 DDDFREFV-DQIPPGCEITVVSDSCHSGGLID 146
DDD + + ++P +T V D HSG ++D
Sbjct: 209 DDDIHKLLFSRLPEKVRLTAVFDCGHSGSIMD 240
Score = 31.6 bits (70), Expect = 0.95, Method: Compositional matrix adjust.
Identities = 23/71 (32%), Positives = 42/71 (59%), Gaps = 5/71 (7%)
Query: 338 ILVSGCQTDQTSAD----ASPSGKASEAYGALSNAIQIIIAESDGAVTNRELVLSTRQML 393
+++SGC +QTSAD A+ ++ A GA + I ++ + +++ +L++ TR ML
Sbjct: 273 MMISGCADEQTSADVKNTATFGTGSTGAGGAATQCITCMLMNNQ-SLSYGKLLIETRDML 331
Query: 394 KKQGFTQQPGL 404
K++ F Q P L
Sbjct: 332 KRKRFKQVPQL 342
>pdb|4F6O|A Chain A, Crystal Structure Of The Yeast Metacaspase Yca1
Length = 350
Score = 102 bits (254), Expect = 4e-22, Method: Compositional matrix adjust.
Identities = 56/149 (37%), Positives = 84/149 (56%), Gaps = 6/149 (4%)
Query: 3 KKAVLIGINYPGTKAELKGCVNDVKRMYACLVDRYGFSEENITVLI-DTDDRSTQPTGRN 61
+KA++IGINY G+K +L+GC+ND ++ L + YG+S ++I +L D +D PT N
Sbjct: 54 RKALIIGINYIGSKNQLRGCINDAHNIFNFLTNGYGYSSDDIVILTDDQNDLVRVPTRAN 113
Query: 62 IRRALGNLVRSAEPGDVLFVHYSGHGTRLPAXXXXXXXXXXXXCIVPSDMNL---ITDDD 118
+ RA+ LV+ A+P D LF+HYSGHG + I P D I DD+
Sbjct: 114 MIRAMQWLVKDAQPNDSLFLHYSGHGGQT-EDLDGDEEDGMDDVIYPVDFETQGPIIDDE 172
Query: 119 FRE-FVDQIPPGCEITVVSDSCHSGGLID 146
+ V + G +T + DSCHSG ++D
Sbjct: 173 MHDIMVKPLQQGVRLTALFDSCHSGTVLD 201
>pdb|3BIJ|A Chain A, Crystal Structure Of Protein Gsu0716 From Geobacter
Sulfurreducens. Northeast Structural Genomics Target
Gsr13
pdb|3BIJ|B Chain B, Crystal Structure Of Protein Gsu0716 From Geobacter
Sulfurreducens. Northeast Structural Genomics Target
Gsr13
pdb|3BIJ|C Chain C, Crystal Structure Of Protein Gsu0716 From Geobacter
Sulfurreducens. Northeast Structural Genomics Target
Gsr13
Length = 285
Score = 43.9 bits (102), Expect = 2e-04, Method: Compositional matrix adjust.
Identities = 26/85 (30%), Positives = 40/85 (47%), Gaps = 4/85 (4%)
Query: 65 ALGNLVRSAEPGDVLFVHYSGHGTRLP-AXXXXXXXXXXXXCIVPSDMNLITDDDFREFV 123
A+G ++ GD+ + YSGHG ++P C+ D LI DD+ +
Sbjct: 63 AIGKAAKALGKGDIFXLSYSGHGGQVPDTSNDEPDGVDETWCLF--DGELI-DDELYALL 119
Query: 124 DQIPPGCEITVVSDSCHSGGLIDEA 148
+ G + V SDSCHSG ++ A
Sbjct: 120 GKFAAGVRVLVFSDSCHSGTVVKXA 144
>pdb|1Z9P|A Chain A, X-Ray Structure Of A Cu-Zn Superoxide Dismutase From
Haemophilus Ducreyi
pdb|1Z9P|B Chain B, X-Ray Structure Of A Cu-Zn Superoxide Dismutase From
Haemophilus Ducreyi
Length = 155
Score = 29.6 bits (65), Expect = 3.2, Method: Compositional matrix adjust.
Identities = 36/118 (30%), Positives = 49/118 (41%), Gaps = 27/118 (22%)
Query: 160 EEEESGSGFNFKSFLHKKVENAFESRGIHIPSGLRHHRPSGDEDVEDREVEAGYGEGGYH 219
E ES G F LH + A G HI H +PS + +D ++ AG G GG+
Sbjct: 23 EITESAYGLVFTPKLH---DLAHGLHGFHI-----HEKPSCEPKEKDGKLVAGLGAGGHW 74
Query: 220 KNKSLPLSTLIEILKQQTG---KDDIDVGKIRPTLFDMFGEDAT-----PKVKKFMKV 269
K Q+ G DD +G + P LF M AT P++KK +V
Sbjct: 75 DPKQ----------TQKHGYPWSDDAHMGDL-PALFVMHDGSATTPVLAPRLKKLAEV 121
>pdb|1Z9N|A Chain A, X-Ray Structure Of A Cu-Zn Superoxide Dismutase From
Haemophilus Ducreyi With Haem Bound At The Dimer
Interface
pdb|1Z9N|B Chain B, X-Ray Structure Of A Cu-Zn Superoxide Dismutase From
Haemophilus Ducreyi With Haem Bound At The Dimer
Interface
pdb|1Z9N|C Chain C, X-Ray Structure Of A Cu-Zn Superoxide Dismutase From
Haemophilus Ducreyi With Haem Bound At The Dimer
Interface
pdb|1Z9N|D Chain D, X-Ray Structure Of A Cu-Zn Superoxide Dismutase From
Haemophilus Ducreyi With Haem Bound At The Dimer
Interface
Length = 177
Score = 29.3 bits (64), Expect = 4.7, Method: Compositional matrix adjust.
Identities = 36/118 (30%), Positives = 49/118 (41%), Gaps = 27/118 (22%)
Query: 160 EEEESGSGFNFKSFLHKKVENAFESRGIHIPSGLRHHRPSGDEDVEDREVEAGYGEGGYH 219
E ES G F LH + A G HI H +PS + +D ++ AG G GG+
Sbjct: 45 EITESAYGLVFTPKLH---DLAHGLHGFHI-----HEKPSCEPKEKDGKLVAGLGAGGHW 96
Query: 220 KNKSLPLSTLIEILKQQTG---KDDIDVGKIRPTLFDMFGEDAT-----PKVKKFMKV 269
K Q+ G DD +G + P LF M AT P++KK +V
Sbjct: 97 DPKQ----------TQKHGYPWSDDAHMGDL-PALFVMHDGSATTPVLAPRLKKLAEV 143
Database: pdbaa
Posted date: Mar 3, 2013 10:34 PM
Number of letters in database: 14,973,337
Number of sequences in database: 62,578
Lambda K H
0.314 0.134 0.387
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 12,411,338
Number of Sequences: 62578
Number of extensions: 520465
Number of successful extensions: 952
Number of sequences better than 100.0: 10
Number of HSP's better than 100.0 without gapping: 6
Number of HSP's successfully gapped in prelim test: 4
Number of HSP's that attempted gapping in prelim test: 932
Number of HSP's gapped (non-prelim): 15
length of query: 417
length of database: 14,973,337
effective HSP length: 101
effective length of query: 316
effective length of database: 8,652,959
effective search space: 2734335044
effective search space used: 2734335044
T: 11
A: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (21.9 bits)
S2: 53 (25.0 bits)